BtaINT0129316 @ bosTau6
Intron Retention
Gene
ENSBTAG00000046911 | SCN10A
Description
sodium channel, voltage gated, type X alpha subunit [Source:HGNC Symbol;Acc:HGNC:10582]
Coordinates
chr22:12150010-12155448:-
Coord C1 exon
chr22:12155344-12155448
Coord A exon
chr22:12150281-12155343
Coord C2 exon
chr22:12150010-12150280
Length
5063 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
CCCATCTCTTATTTTCTCAGAAT
3' ss Score
8.91
Exon sequences
Seq C1 exon
TTAGGGGGCCAGGACATCTTCATGACAGAGGAGCAGAAGAAATACTACAACGCCATGAAGAAGCTGGGCTCCAAGAAGCCCCAGAAGCCCATCCCACGGCCCCTG
Seq A exon
GTGAGCCCCAAATCCCCCCACCCCCTCTAGCAGGGCATGTCACTCCAACCTGACAGCCCATGCCTGTGCTGGTAGGGGTCTGACCAGAATTCTCTGTGGAGGAGGACATCTAGTTGAGTTTGGGGATGAGCTAATGAGAGTTTCCAGGCCCCAGGAAAAAACGTCTGCAAGAAGCAACTCTGGTCTTCTGGAGTGAACATACTCCTGTAGATGTTCCAAATAGACCCGTGTAGGGAAGTAGTGAATTGCCCAACAGGGTTAGGGTTCCAGCACCAGATCAGAAACAGATTAGGCTAAATGATATTAAGGATGGTTCGAGACCTGAGATTAAACATTTGTGATTATGAGTCATGATGTAGGTTGCAATGTATCTCCAGGCTCACCACCACATTCCACCCTATGCTTACAGGTAGACAGAGAGAAAATGGCCAAACCCAGCCCAGCTGGGATCCTGGGCCCAGTCATGGTCATGGTCAGGTGACACAATAGGAACCAAAAATTATCCCACTTTAGTGTTTAAAGACTGACCAAAGCTTAGCGCCATACCCCTCTTTGATTCTTTTGTTCACTAAAAGCCATGGCTCAAGCCCATTAGCCCTTCCTCACACAAGGGCAAAGCCTAAGGACCTTCAGCAAAGGTACAGGCCTTTTCCTAAATGAATCAGGGAAACAAACATTCTGTTGGTCAAGGGATTAGGATTTCTAAATCAAGGCATGGGGTTTGCATAAGTTACTAAAAACTTCATGAGCACAAAGTCTTAAAAACATTTACAGGAGGGGAAAATGCTGTGACCTGTCACACACTTTACTTGGAAACTGTGATCACAAATGTATCACTACTCTCAGTTCTGATAAGAGGTGTTACAGTAGGGAGTGAGAGGACGTTCAGATCTCTGTAGGGGCAGAGGTTTCCTTCCAAATCCAGTGTAAGATCAAGATAACTGGGGTTGAATTAGCCTGAAGTGAGTCCCTAAGGTTCAGCGAGTATCCCTCCAATGTCCAATGAACAAGTTCAAACTTAGAAGATGTAGATGAAAGGCTGAGCCCAGCCAATCATACTCAAGTAGGGGTTATGGGCGAAGGTTCCTAAGACCTACTGAGAAGCAAGCAGCTGAGTCTTTGCTAGTCTATACTGATGGCTGGACTGGTTTTGAATCCACATTTGAACAGACAGCAAGGTGTTCTCTGCTAGAGGCAACCCTTGGCAAAATCATGACTGCTTGGGGTACCTCTCCCTACATACTTGCTTCATCTCTCTATAACATCTCAGCTTCTCCCCTCTCATCAGTCAATCCCACATGCCAATCACAGCTTTCTCCTCTCAAGGAGGACAATTTCCTTGGGACAGAGTGGGTTCTATTTCCAAAAGGGACCATGGAGAGGGTGCTGTCTGAATACAAAGGTAGGACTCTAGTGTTGAAATTCCAGACAGTGCAATAGGGGTGGAAGTCAGTGGTTGAGTAGGAAGACCTACAACAAAATCATCATGTTTCCTAATTGTGTGCACCATCCCCAAGGTCCTCCAAGGTGAGCACTGGAGGAGGCCTTCCATGTGGGTGAGAAAAGTAAGGCCTCATAGCCCAGCTGAGTTCCTGACATTAGTCATTCCTTTGGATGGGATGGGGGTGTATCATTAACTATCAGCACTAATAGCTCTAGTGGAGGAACGTGACTCTCTCCTTAATATTCTGGTCCAGGCATGGCCAACATTCTTTCCTTTGTTCCGTTCAGCATAGCTGAGGCAGGGTTGGAACATTTAAACAAGACTTTGAGGCTTAGGGATGCCAAAAGGGAAACTGGCAGAGCAGGACCCGAGCAGCAATTGCATCTGGCTGGTCTCCAGGACCCACAAGCCTTGGCCCATCCTAGCTCCTGGCTGGCATCCATATGGCAGGCGACATCTTGGCACCCACTATCCACTGGGACAAAGCTGATCATCTGCCCTCCACAATGTCCAGAGCCAAGAAAGAAGCCCAAGCCCAAAGAGAAATGCCTGCTCCCATCTAAGACTCACCTTCCCAGGTCTGGTCTCCTCCTCATCAGATTACTAGCACTGGAATGGCCACCTTCTTCCCTAAGGGGTCCCAACAGGTGGAGCTGGTCAAGTAAGGTGAGCATTGGTATAGGACTCTGCTCCACAGGTGCACGTGTGCCAGTTCATAGCAGGGCCAAGCTCGGATGACATACAGACCTCCAACACATGCATGTACATAGTACTCCTTGCCTCAGGTGAAGCCCAAGTTCTAAATCTTTTGCTTCATTATAGCAAAGACAAAACCTTCCACAAAACTGGTAAATTTTATTCTGCAACATTCCCTACTATAGAAATCATTAAAAGTAGGTTTCATATACTCCACTTTATAAGAAAATAATAGGCTCCAGAATATCACATCATCAGTCACCCACTTCATCATCTCTGAGAGCACCGAGGGTTGCAAAGAGGTGATCTCTGCCCACAAGCTAAGCCAAGAGCAGCTAGAAAGCTGCATCATTCCCCAGCAGCTGAGTATCGAGGACAAACATGATGTCCAGACTTAGCAGTGTTGCCTGCTCTGTCTCATTAGAAGTCATGAATGGGCCTGTATTTTTTTCACCATTTTCAGTGATGAAATAAAAACTACCAGTGCTCAGCATCCCAGAAAAGACATGAGCCAGCAGCTATGCCTGGAGCCAGGCCCGCTTGGGTCTGATTCTTTGCTCAAACCCTGCAGGGTAGCATCCCATCCCCACTGTGAAGCAGAAAGCAGGAACCAGCCTCTATCACGGCCCTTCTCCCCTCTGCCTGCTTCGCAGCTCCTGGGAGCTCCCTAGCGAGACTCATAACAGGTTCCTTTCTCCCTCACAGCCACTCATGCAGAGCTCTGCACATACTATGCACTCAGGAAGTCCTTCTTGTACAGAAGTAAATGTAAGCAACCTAGTGGAGTGACTTTATAATTCTATTTGAAGTGTAATTCAGTTGTCCATTCATTCAGCTATCTATTGATCATCTAGTGCATGCTAGATACTATGCAGACACTGGGGATAGAGCAGTGAGATGTTCCTGCCCTCACAGAGATGGCAGTCCAGTGACGCAGGAAAACAATTAGCAAAATCACACACATATTAGTTCACAGGCTGGAGAAATTGCCAGGAAAGAAAGAATGGGGTGAAGAGCAAAGGGTACCTAAGACTGAGCCTGGAGGAACTCTAACATCTCAAGGTTGAGTAAAGAAGACTCAAAAAAGAGCAGCCAGAAAGGCAAGAAAAGAATCGGGGAAGTAAGGCCTGCTAGGAACCAAGTAAGGAGCATTTCAAGGTGGAGGATGTGCTAAATGATGTCAAATAAGTGTTTTGGGATTTTGCATCATGGAGGTTATGAGATCTTAACAAGAGACATTTTAGCGACAGGATGGGGACAAAAGCTATGTTGGAGGAGGCTGAGGAGTGCATGGGAAACAATGACTACACATAACTCTTTCAAGAAATTTAACTGTGAAAGTGGGGAGAGAAGTAGTCTGGTAGCTGGAGAGAGACATGTGGTTTAAGATTTTTCTCTAAGGAAAAGCTAGATCATTAGAGATTTAGCTAAGGATCTGAGAGCAAATAGCCAAGAGTGGTCAAGTGTGGCCAAGAGTCTCACTCATCAGTAATAAAGCAGAGGGACCAGGATGTAGGTAAGTGGTAGCAAAGAAGAGGGGGTGAAGGTGGGCTAACTTGATGATGCAGGTGTCAGAGGAGGAGAGGTTTTATGAGACACAGGAGGAGCAAAGGTCTGGGAGTGACCGTGAGGAATTAGAGGGACTTCATCTCTGTCCCCAGCCCTGGGGTCTATGGAGTGGGGAGAATAAGCAGCTGGTGAGTAAGAGGAGAAGTTTGCCGATCAAGGCAGGTGAGTTCCAGAGAGCTCAGAAGTGTCAAAGACGAGGTGAGGGAGGAGAGTAAAGTTGGAATCAAGAACTCACAGAACAGTAAGATGTTAACAGCACAGGAAAGACTAGAGGGCCACACAAGGAAAAAAAATTTTTTAATGCCATAAAAACAGCCCCTATCCAAAATGATATCTTGGTTGTCCAGGCCACTCTGCCTTCCTCTAAGAAAGCAAATAACCAAGACCTGACTCTGTGCCCTGCTTAGACATCTATCCAGGAATAAAAATAGCATTTATAAGAATCAGTTGTACCACTGCACTTGACTTTATATGCATGTGCACTACTCGACTTGACTCTCAAATAATTTTTCAAGAAGTTCTTGAACTCTTGCTCTATGCAGGGCACTGCAGGAACACAAAATTAAATAAGACATGACCCCTCCTCAAAGAGCTCATTTTCTAGTAGAAAAGAGAGGTATACAGGAAACACTAGAACTCTAGACTGACTGTAAAGGCTGTTCAGTTCAGTTCAGTTCAGTTGCTCAGTTGTGTCTGACTCTTTGTGACCCCATGGATTGTCCATCACCAACTCCCGGAGCTTGCTCAAACTCATGTCCATTGAATTGGTGATGCCATTCAAACATCTCATCCTCTGTCATCCCCTTCTTCTCCTGCCTTCAATCTTGCCCAGCATCAGGGTCTTTTCTAATGAATCAGTTCTTCGGATCAGGTGGCCAAAGTATTGGAGTTTCAGCTTCAGCATCCATCCTTCCAATGAATATTCAGGAATATTTGATTTCCTTGTAAAGGCTGGGGGAGCCCAAAGAAGGGATGAAGTGATGTGGTATGGTGTAATTGAAGACTCCCTGAGGGAAGTGGGGATTAAGAGAGAGAGATCACTCAAGGGGATTTAGATGGCCAAGAGAAGGGACTGGAAAGGCACTGTAAGTGGAGGAAAGAGCATAGACAGGGACAAAGTGCCTGGTGATTTTATGGTGCCAGGAATGGCAACCAGGACTTGAGCTGAGGCACTGAGTTAGAATCAACCACAAGTGAGATTTTGGAAGATCAAGACTTGGCTTCTGTCAGGATGTGGAGTGTGAGGGAGATTAAAGAGACAGACTTTAAAAACCCTTCTGTAAAGAACACTGCCTCTCCAGGTGCCTGGTTTATGTTGCCCAAAGGCCTGATGTCCCATCTCTTATTTTCTCAG
Seq C2 exon
AATAAGTACCAGGGTTTTGTCTTTGACATCGTGACCAGGCAGACTTTTGACATCGTTATCATGGTCCTCATCTGCCTCAACATGATCACCATGATGGTGGAGACTGATGAGCAGAGTGAAGAAAAGACAAAAGTCCTGAACAAAATCAACCAGTTCTTTGTGGCTGTCTTCACGGGAGAGTGTGTCATGAAGATGTTTGCCTTGAGACATTACTACTTCACCAACGGCTGGAATGTGTTTGACTTCGTCGTCGTGGTCCTCTCCATTGGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046911:ENSBTAT00000065485:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0052026=Ion_trans=PU(20.3=47.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]